SMTL ID : 1wmb.1

Crystal structure of NAD dependent D-3-hydroxybutylate dehydrogenase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-tetramer

Ligands

4 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 1 residues within 4Å: Chain A: D.38 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.38, A:D.38, H2O.1, H2O.1 MG.3: 1 residues within 4Å: Chain B: D.38 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.38, B:D.38, H2O.9, H2O.9 MG.5: 1 residues within 4Å: Chain C: D.38 4 PLIP interactions: 2 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:D.38, C:D.38, H2O.17, H2O.17 MG.7: 1 residues within 4Å: Chain D: D.38 4 PLIP interactions: 2 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:D.38, D:D.38, H2O.26, H2O.26

4 x CAC: CACODYLATE ION(Non-covalent)

CAC.2: 6 residues within 4Å: Chain A: Q.94, S.142, H.144, Y.155, G.186, W.257 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.94 Water bridges: A:Q.94, A:K.152 CAC.4: 7 residues within 4Å: Chain B: Q.94, S.142, Y.155, P.185, G.186, W.187, W.257 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:Q.94, B:S.142, B:Y.155 Water bridges: B:K.152 CAC.6: 6 residues within 4Å: Chain C: Q.94, S.142, H.144, Y.155, G.186, W.257 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:Q.94 Water bridges: C:Q.94, C:K.152 CAC.8: 7 residues within 4Å: Chain D: Q.94, S.142, Y.155, P.185, G.186, W.187, W.257 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:Q.94, D:S.142, D:Y.155 Water bridges: D:K.152

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ito, K. et al., d-3-Hydroxybutyrate Dehydrogenase from Pseudomonas fragi: Molecular Cloning of the Enzyme Gene and Crystal Structure of the Enzyme. J.Mol.Biol. (2006)

Release Date

2005-09-06

Peptides

D(-)-3-hydroxybutyrate dehydrogenase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

D(-)-3-hydroxybutyrate dehydrogenase

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